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NM_000249.4(MLH1):c.55_63delinsT (p.Ile19fs) AND Lynch syndrome 1

Germline classification:
Pathogenic (1 submission)
Last evaluated:
Apr 4, 2024
Review status:
1 star out of maximum of 4 stars
criteria provided, single submitter
Somatic classification
of clinical impact:
None
Review status:
(0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided
Somatic classification
of oncogenicity:
None
Review status:
(0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided
Record status:
current
Accession:
RCV001849899.4

Allele description [Variation Report for NM_000249.4(MLH1):c.55_63delinsT (p.Ile19fs)]

NM_000249.4(MLH1):c.55_63delinsT (p.Ile19fs)

Gene:
MLH1:mutL homolog 1 [Gene - OMIM - HGNC]
Variant type:
Indel
Cytogenetic location:
3p22.2
Genomic location:
Preferred name:
NM_000249.4(MLH1):c.55_63delinsT (p.Ile19fs)
HGVS:
  • NC_000003.12:g.36993602_36993610delinsT
  • NG_007109.2:g.5253_5261delinsT
  • NG_008418.1:g.4695_4703delinsA
  • NM_000249.4:c.55_63delinsTMANE SELECT
  • NM_001167617.3:c.-462_-454delinsT
  • NM_001167618.3:c.-891_-883delinsT
  • NM_001167619.3:c.-804_-796delinsT
  • NM_001258271.2:c.55_63delinsT
  • NM_001258273.2:c.-578_-570delinsT
  • NM_001258274.3:c.-1041_-1033delinsT
  • NM_001354615.2:c.-572_-564delinsT
  • NM_001354616.2:c.-572_-564delinsT
  • NM_001354617.2:c.-664_-656delinsT
  • NM_001354618.2:c.-896_-888delinsT
  • NM_001354619.2:c.-1020_-1012delinsT
  • NM_001354620.2:c.-230_-222delinsT
  • NM_001354621.2:c.-989_-981delinsT
  • NM_001354622.2:c.-1102_-1094delinsT
  • NM_001354623.2:c.-1011_-1003delinsT
  • NM_001354624.2:c.-772_-764delinsT
  • NM_001354625.2:c.-670_-662delinsT
  • NM_001354626.2:c.-767_-759delinsT
  • NM_001354627.2:c.-999_-991delinsT
  • NM_001354628.2:c.55_63delinsT
  • NM_001354629.2:c.55_63delinsT
  • NM_001354630.2:c.55_63delinsT
  • NP_000240.1:p.Ile19fs
  • NP_001245200.1:p.Ile19fs
  • NP_001341557.1:p.Ile19fs
  • NP_001341558.1:p.Ile19fs
  • NP_001341559.1:p.Ile19fs
  • LRG_216:g.5253_5261delinsT
  • NC_000003.11:g.37035093_37035101delinsT
Protein change:
I19fs
Links:
dbSNP: rs2125694105
NCBI 1000 Genomes Browser:
rs2125694105
Molecular consequence:
  • NM_001167617.3:c.-462_-454delinsT - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_001167618.3:c.-891_-883delinsT - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_001167619.3:c.-804_-796delinsT - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_001258273.2:c.-578_-570delinsT - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_001258274.3:c.-1041_-1033delinsT - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_001354615.2:c.-572_-564delinsT - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_001354616.2:c.-572_-564delinsT - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_001354617.2:c.-664_-656delinsT - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_001354618.2:c.-896_-888delinsT - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_001354619.2:c.-1020_-1012delinsT - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_001354620.2:c.-230_-222delinsT - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_001354621.2:c.-989_-981delinsT - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_001354622.2:c.-1102_-1094delinsT - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_001354623.2:c.-1011_-1003delinsT - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_001354624.2:c.-772_-764delinsT - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_001354625.2:c.-670_-662delinsT - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_001354626.2:c.-767_-759delinsT - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_001354627.2:c.-999_-991delinsT - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_000249.4:c.55_63delinsT - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_001258271.2:c.55_63delinsT - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_001354628.2:c.55_63delinsT - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_001354629.2:c.55_63delinsT - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_001354630.2:c.55_63delinsT - frameshift variant - [Sequence Ontology: SO:0001589]
Functional consequence:
loss_of_function_variant [Sequence Ontology: SO:0002054]
Observations:
1

Condition(s)

Name:
Lynch syndrome 1
Synonyms:
COLON CANCER, FAMILIAL NONPOLYPOSIS, TYPE 1; MSH2-Related Hereditary Non-Polyposis Colon Cancer; Lynch syndrome I; See all synonyms [MedGen]
Identifiers:
MONDO: MONDO:0007356; MedGen: C2936783; Orphanet: 144; OMIM: 120435

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Assertion and evidence details

Help
Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV002106382University of Science and Technology Houari Boumediene, Laboratory of Molecular and Cellular Biology (LBCM)
criteria provided, single submitter

(ACMG Guidelines, 2015)		Pathogenic
(Apr 4, 2024) 		germlineclinical testing

PubMed (1)
[See all records that cite this PMID]

Help

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineyes1not providednot providednot providednot providedclinical testing

Citations

PubMed

Standards and guidelines for the interpretation of sequence variants: a joint consensus recommendation of the American College of Medical Genetics and Genomics and the Association for Molecular Pathology.

Richards S, Aziz N, Bale S, Bick D, Das S, Gastier-Foster J, Grody WW, Hegde M, Lyon E, Spector E, Voelkerding K, Rehm HL; ACMG Laboratory Quality Assurance Committee..

Genet Med. 2015 May;17(5):405-24. doi: 10.1038/gim.2015.30. Epub 2015 Mar 5.

PubMed [citation]
PMID:
25741868
PMCID:
PMC4544753

Details of each submission

From University of Science and Technology Houari Boumediene, Laboratory of Molecular and Cellular Biology (LBCM), SCV002106382.3

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
11not providednot providedclinical testing PubMed (1)
#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineyesnot providednot providednot provided1not providednot providednot provided

Last Updated: Jun 9, 2024